Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 144 of 214
Found at i:43277113 original size:18 final size:17
Alignment explanation
Indices: 43277092--43277126 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43277082 TTATTATTAA
*
43277092 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43277110 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43277127 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43277168 original size:120 final size:120
Alignment explanation
Indices: 43276955--43278063 Score: 1927
Period size: 120 Copynumber: 9.2 Consensus size: 120
43276945 ATCATATTTA
43276955 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
43277020 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
43277075 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
43277140 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
43277195 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
43277260 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
43277315 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
43277380 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
43277435 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
43277500 TATTCTTATATTAATTTATTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
43277555 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
43277620 TATTATTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
43277675 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * * *
43277740 TATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * *
43277795 GAA-ATAATTATTATTAAATATATTTTAATTAAGATATATGATTTAATAAAATTCTTAATAATCA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
* * * * *
43277859 ATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAATTT
65 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
43277915 GAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAAT-ATTC
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-
* * * * * *
43277978 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
43278035 AAAATAATTATTATTAAATATAATTTAAT
1 AACATAATTATTATTAAATATATTTTAAT
43278064 ATTTTTTTCT
Statistics
Matches: 965, Mismatches: 21, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.00
120 959 0.99
121 2 0.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:43277233 original size:18 final size:17
Alignment explanation
Indices: 43277212--43277246 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43277202 TTATTATTAA
*
43277212 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43277230 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43277247 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43277353 original size:18 final size:17
Alignment explanation
Indices: 43277332--43277366 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43277322 TTATTATTAA
*
43277332 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43277350 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43277367 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43277473 original size:18 final size:17
Alignment explanation
Indices: 43277452--43277486 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43277442 TTATTATTAA
*
43277452 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43277470 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43277487 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43277713 original size:18 final size:17
Alignment explanation
Indices: 43277692--43277726 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43277682 TTATTATTAA
*
43277692 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43277710 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43277727 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43277953 original size:18 final size:17
Alignment explanation
Indices: 43277930--43277966 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
43277920 AATTATTATT
43277930 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
43277946 AAATATATGATTTAATA
1 AAATATATGATTTAATA
43277963 AAAT
1 AAAT
43277967 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:43282296 original size:11 final size:11
Alignment explanation
Indices: 43282280--43282304 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43282270 AATATTTTTC
43282280 AATAAATTAAA
1 AATAAATTAAA
43282291 AATAAATTAAA
1 AATAAATTAAA
43282302 AAT
1 AAT
43282305 TTTATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAATTAAA
Found at i:43282426 original size:14 final size:14
Alignment explanation
Indices: 43282407--43282463 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
43282397 TACAATATCC
43282407 AAATAATAACAATA
1 AAATAATAACAATA
43282421 AAATAATAACAATA
1 AAATAATAACAATA
* *
43282435 AAATGATAGCAA-A
1 AAATAATAACAATA
*
43282448 ATAATAATAAAAATA
1 A-AATAATAACAATA
43282463 A
1 A
43282464 CAAGAAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 2 0.06
14 32 0.89
15 2 0.06
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:43288098 original size:31 final size:31
Alignment explanation
Indices: 43288057--43288115 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
43288047 GTTACTAAAT
* *
43288057 TATTTGAAAGTTTTCATTTATGTCACTGAAC
1 TATTTAAAAGTTTTCATTTAAGTCACTGAAC
*
43288088 TATTTAAAAGTTTTTATTTAAGTCACTG
1 TATTTAAAAGTTTTCATTTAAGTCACTG
43288116 GGTAGTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (31 bp):
TATTTAAAAGTTTTCATTTAAGTCACTGAAC
Found at i:43291937 original size:16 final size:16
Alignment explanation
Indices: 43291916--43291951 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
43291906 TATTAACAAA
43291916 ATAATTTTCCCCCTCT
1 ATAATTTTCCCCCTCT
43291932 ATAATTTTCCCCCTCT
1 ATAATTTTCCCCCTCT
43291948 ATAA
1 ATAA
43291952 ATAAGAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTTTCCCCCTCT
Found at i:43293366 original size:127 final size:126
Alignment explanation
Indices: 43293135--43293742 Score: 748
Period size: 125 Copynumber: 4.8 Consensus size: 126
43293125 TGAAAAATTT
* * * *
43293135 ATTTCGAGTTGATGTTTCTGGGCAAATAGTATGAAAAAACGCTTCAAGCAAGATGCTATTTGAGA
1 ATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAGCAGGATGCTATTTGAGA
* *
43293200 AGAATTTCTGAAATTGCGCCCTCATGGACGCGCTTTTGCTACAGTTGGTCTTGGAAGAAATG
65 AGAATTTCTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATG
* *
43293262 ATTTTGAGTTGACGTTTTTGAGCAAATAGTATGAAAAAACGCTTCAAGCAAGATGCTATTTGAGA
1 ATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAGCAGGATGCTATTTGAGA
*
43293327 AGAATTTCTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTTGGTCTTGGAAGAAATG
65 AGAATTTCTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATG
* * *
43293389 ATTTTGAGTTGACGTTTTTGAGCAAATAGTAT-AAAATCGCTTCTA-CTAGGATGCT-TTATGAG
1 ATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC-AGGATGCTATT-TGAG
* * * * * *
43293451 AAGAATTTGTGAAATCGCGTCC-AAGTGGACGCGCTTTTGCTACAGTAGGTCCT--AA-AATTTT
64 AAGAATTTCTGAAATCGCGCCCTCA-TGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAA-ATG
* * * * *
43293512 TTTTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAGATTCAAGCAGGATGCGATCTGAGA
1 ATTTT-GAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGAGA
* * * *
43293577 AGAATTTCTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTTGGTCCTGAAAGAAATA
65 AGAATTTCTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATG
* * ** *
43293639 ATTTCGAGTTGACGTTTCTAAGCAAATAGTAT-AAAATTGCTTCTAGCAGGATGCT-TTATGAGA
1 ATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATT-TGAGA
* * * * *
43293702 AGAATTTGTGAAATCGCACCCACGTGGATGCGCTTTTGCTA
65 AGAATTTCTGAAATCGCGCCCTCATGGACGCGCTTTTGCTA
43293743 TAGTAGCATG
Statistics
Matches: 425, Mismatches: 43, Indels: 28
0.86 0.09 0.06
Matches are distributed among these distances:
122 2 0.00
123 7 0.02
124 31 0.07
125 195 0.46
126 28 0.07
127 160 0.38
128 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (126 bp):
ATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGAGAA
GAATTTCTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATG
Found at i:43296982 original size:22 final size:22
Alignment explanation
Indices: 43296950--43297858 Score: 933
Period size: 22 Copynumber: 42.0 Consensus size: 22
43296940 AGCCTTTATG
*
43296950 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
43296972 TTATGAATTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
**
43296994 TTATAGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297015 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* ***
43297037 TTATGAAATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297059 TTACGAG-TTTTAAGTTAAGGG-
1 TTA-GGGTTTTTAAGTTAAGGGT
*
43297080 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
43297102 TTATGGTCTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* * *
43297124 TTAGGATTTTTAGGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297146 TTAGGGTTTTTAAGTTAAGAG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
43297167 TTAGGGTTTTTAGGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
43297189 TTATGGAATTTAAGTTAA-GG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297209 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* ** *
43297231 TTATGGAATTTAAGTTAAAGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297252 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
43297274 TAAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
43297296 TTATGGG-TTTTAAGTTAAGGGT
1 TTA-GGGTTTTTAAGTTAAGGGT
*
43297318 TTATGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
43297339 TTAAGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* ** *
43297361 TTATGGAATTTAAGTTAA-GGA
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297382 TTA-GGTTTTT-AGTTTAATGGT
1 TTAGGGTTTTTAAG-TTAAGGGT
** ** *
43297403 TTATAGAATTTAAGCTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
43297425 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297446 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
43297468 TTATGGAATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
43297490 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
43297511 TTAGAGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
43297533 TTATGGAATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
43297555 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297576 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* ** *
43297598 TTATGGAATTTAAGTTAAAGGT
1 TTAGGGTTTTTAAGTTAAGGGT
43297620 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297641 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *** *
43297663 TTATGAAATTTAAGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297685 TTATGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297707 TT-GGGGTTTTAAGTTTAA-GGT
1 TTAGGGTTTTTAAG-TTAAGGGT
*
43297728 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
43297750 TTAAGGTTTTTAGGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
**
43297771 TTAAAGTTTTT-AGCTTAAGGGT
1 TTAGGGTTTTTAAG-TTAAGGGT
* * * *
43297793 TTATGGTTTTTAGGTTTAGGAT
1 TTAGGGTTTTTAAGTTAAGGGT
*
43297815 TTAGCGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
43297836 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
43297858 T
1 T
43297859 AGGATTAGGG
Statistics
Matches: 729, Mismatches: 132, Indels: 52
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.00
20 26 0.04
21 238 0.33
22 457 0.63
23 6 0.01
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:43297026 original size:65 final size:64
Alignment explanation
Indices: 43296949--43297861 Score: 940
Period size: 65 Copynumber: 14.1 Consensus size: 64
43296939 AAGCCTTTAT
** **
43296949 GTTAGGGTTTTTAGGTTAAGGGTTTATGAATTTTAAGTTAAGGGTTTATAGTTTTTAAGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGG
*** *
43297014 GTTAGGGTTTTTAGGTTAAGGGTTTATGAAATTTAAGTTAAGGGTTTACGAG-TTTTAAGTTAAG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTA-GGGTTTTTAAGTTAAG
43297078 G
64 G
* * *
43297079 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTCTTTAAGTTAAGGGTTTAGGATTTTTAGGTTAAGA
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG-
43297144 G
64 G
* * * * * * * **
43297145 TTTAGGGTTTTTAAGTTAAGAG-TTAGGGTTTTTAGGTTAAGAGTTTATGGAATTTAAGTTAA-G
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGG
** * *
43297208 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAAGGTTAGGGTTTTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
* *
43297272 GTTAAGGGTTTTTAGGTTAAGGGTTTATGGGTTTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAG
1 GTT-AGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
43297337 G
64 G
* ** *
43297338 GTTAAGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGATTA-GGTTTTT-AGTTTAATG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAG-TTAA-G
43297401 G
64 G
* ** ** * * * *
43297402 TTTATAGAATTTAAGCTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
* ** * * * *
43297466 GTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAGGTTAAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
* ** * * *
43297531 GTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
* ** * * * *
43297596 GTTTATGGAATTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
* *** * * * *
43297661 GTTTATGAAATTTAAGTTAAGAGTTTATGGTTTTTAAGTTAAGGGTTTGGGGTTTTAAGTTTAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAG-TTAAG
43297726 G
64 G
* * * **
43297727 TTTAGGGTTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTTAAGGGTTAAAGTTTTT-AGCTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAG-TTAAGG
* * *
43297791 GTTTATGGTTTTTAGGTTTAGGATTTA-GCGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATG-GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
43297855 G
64 G
43297856 GTTAGG
1 GTTAGG
43297862 ATTAGGGTTA
Statistics
Matches: 742, Mismatches: 89, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
62 2 0.00
63 46 0.06
64 75 0.10
65 566 0.76
66 53 0.07
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (64 bp):
GTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
Found at i:43297304 original size:15 final size:15
Alignment explanation
Indices: 43297270--43297304 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43297260 TTTAGGTTAA
*
43297270 GGGTTAAGGGTTTTT
1 GGGTTAAGGGTTTAT
*
43297285 AGGTTAAGGGTTTAT
1 GGGTTAAGGGTTTAT
43297300 GGGTT
1 GGGTT
43297305 TTAAGTTAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (15 bp):
GGGTTAAGGGTTTAT
Found at i:43298170 original size:21 final size:21
Alignment explanation
Indices: 43298132--43298171 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43298122 TTGTCTAGCT
*
43298132 TCCGGCGACGGTTGTGGTTAA
1 TCCGGCGACGGTTCTGGTTAA
43298153 TCCGGCGA-GGATTCTGGTT
1 TCCGGCGACGG-TTCTGGTT
43298172 CTTTCGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.12, C:0.20, G:0.38, T:0.30
Consensus pattern (21 bp):
TCCGGCGACGGTTCTGGTTAA
Found at i:43298457 original size:18 final size:18
Alignment explanation
Indices: 43298434--43298473 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
43298424 GACTCGAAAA
* *
43298434 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
43298452 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
43298470 AGGA
1 AGGA
43298474 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:43301957 original size:4 final size:4
Alignment explanation
Indices: 43301948--43301983 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
43301938 TCACCCCTAC
43301948 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
43301984 GATTTATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:43303189 original size:17 final size:19
Alignment explanation
Indices: 43303167--43303202 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
43303157 TATATTAATT
43303167 TTTA-TTTTTAAT-ATTTA
1 TTTATTTTTTAATAATTTA
43303184 TTTATTTTTTAATAATTTA
1 TTTATTTTTTAATAATTTA
43303203 AATGATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTTTTTAATAATTTA
Found at i:43305723 original size:131 final size:131
Alignment explanation
Indices: 43305489--43305761 Score: 465
Period size: 131 Copynumber: 2.1 Consensus size: 131
43305479 GAATAAGCTC
* *
43305489 GCCTTTGTTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTTAATTATTTAGGTTCA
1 GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCA
* *
43305554 ACGCGAGAAAAATTGAAACCCAGTAAGTTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
66 ACGCGAGAAAAATTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
43305619 T
131 T
**
43305620 GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCGGTTATTTAGGTTCA
1 GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCA
* *
43305685 ACGCGAGAAAAATTGAAACCCAATAAATTAGGGCACAACTTCTCGAATTTCTAAATACGGAATAT
66 ACGCGAGAAAAATTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
43305750 T
131 T
*
43305751 GTCTTTATTTT
1 GCCTTTATTTT
43305762 CAAGATTTTC
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 133 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (131 bp):
GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCA
ACGCGAGAAAAATTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
T
Found at i:43307842 original size:137 final size:136
Alignment explanation
Indices: 43307564--43307968 Score: 548
Period size: 137 Copynumber: 3.0 Consensus size: 136
43307554 TTCGTGGCTT
* * *** *
43307564 TGATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAACCGCT--CTTCAATCTGCTCCACT
1 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACT
* * * * **
43307627 GCAACTTTAGGGAGATAAGATT-GATTTATTTTTAACCTGCTCCACTGCAACTTCAGGGAGATAA
66 GCGACTTTAGGGAAATAAGATTCG--CTATCTTTAGTCTGCTCCA-TGCAACTTCAGGGAGATAA
**
43307691 GGTTTGATA
128 GACTTGATA
**
43307700 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCTGCT
1 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACT
*
43307765 GCGACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCAGTGCAACTTCAGGGAGATAAGA
66 GCGACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCA-TGCAACTTCAGGGAGATAAGA
43307830 CTTGATA
130 CTTGATA
* *
43307837 TGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACT
1 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACT
* * *
43307902 GTGACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCC-TGCAACTTTAGGGAGATAAGAC
66 GCGACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCATGCAACTTCAGGGAGATAAGAC
43307966 TTG
131 TTG
43307969 TATCTTCAAC
Statistics
Matches: 240, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
135 24 0.10
136 41 0.17
137 140 0.58
138 34 0.14
139 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (136 bp):
TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACT
GCGACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCATGCAACTTCAGGGAGATAAGAC
TTGATA
Found at i:43308066 original size:89 final size:87
Alignment explanation
Indices: 43307905--43308084 Score: 227
Period size: 89 Copynumber: 2.0 Consensus size: 87
43307895 TTCCACTGTG
* * * *
43307905 ACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCTGCAACTTTAGGGAGATAAGACTTGT
1 ACTTCAAGGAAATAAGATTCGCTATCTTTAGTCTGCTACTGCAACTTCAAGGAGATAAGACTTGT
* * *
43307970 ATCTTCAACCTGCTCTACTACA
66 ATCTTCAACCTACCCCACTACA
* * * *
43307992 ACTTCAAGGAGATAAGGTTTGCTATCTTTAGTCTGTTCTACTGTAACTTCAAGGAGATAAGACTT
1 ACTTCAAGGAAATAAGATTCGCTATCTTTAGTCTG--CTACTGCAACTTCAAGGAGATAAGACTT
43308057 GTAAT-TTCAACCTACCCCACTACA
64 GT-ATCTTCAACCTACCCCACTACA
43308081 ACTT
1 ACTT
43308085 GAGGGGGGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
87 31 0.39
89 46 0.58
90 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (87 bp):
ACTTCAAGGAAATAAGATTCGCTATCTTTAGTCTGCTACTGCAACTTCAAGGAGATAAGACTTGT
ATCTTCAACCTACCCCACTACA
Found at i:43308142 original size:44 final size:44
Alignment explanation
Indices: 43307433--43308143 Score: 347
Period size: 44 Copynumber: 15.8 Consensus size: 44
43307423 TCATCGTTTT
* *
43307433 AATCTGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * *
43307477 AACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTTA-CTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* * * *
43307521 AA-CTTGCTCCACTGCAACTTCAGAGAGATAA-AGTTCGTGGCTTT
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * *
43307565 GATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAACCGCTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGT-A--G--CTTC
* * ** *
43307614 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGATTTATTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-A-GTAGCTTC
* * *
43307660 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT--T-GATAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * *
43307701 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTC
* ** * * * * *
43307752 AATCTGTTCTGCTGCGACTTTAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* *
43307797 AGTCTGCTCCAGTGCAACTTCAGGGAGATAAGACTT-G-A--TAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCT-TC
* * * * *
43307838 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTC
* ** * * * *
43307889 AATCTGTTCCACTGTGACTTCAGGGAAATAAGATTCGCTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* * *
43307934 AGTCTGCT-C-CTGCAACTTTAGGGAGATAAGACTT-GTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * * * * * *
43307976 AACCTGCTCTACTACAACTTCAAGGAGATAAGGTTTGCTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* * * * * **
43308021 AGTCTGTTCTACTGTAACTTCAAGGAGATAAGACTT-GTAATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * * * * * *
43308065 AACCTACCCCACTACAACTTGAGGGGGGTAAGATTAGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
*
43308109 AATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
43308144 CGTCATGATG
Statistics
Matches: 499, Mismatches: 121, Indels: 94
0.70 0.17 0.13
Matches are distributed among these distances:
41 57 0.11
42 17 0.03
43 28 0.06
44 178 0.36
45 81 0.16
46 38 0.08
47 1 0.00
48 2 0.00
49 38 0.08
50 4 0.01
51 55 0.11
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:43309038 original size:9 final size:9
Alignment explanation
Indices: 43309020--43309062 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
43309010 TTGGTATCTC
43309020 TTTT-TTAT
1 TTTTCTTAT
43309028 TTTTCTTAT
1 TTTTCTTAT
43309037 TTTTCTTA-
1 TTTTCTTAT
43309045 TTTTCTTTAT
1 TTTTC-TTAT
43309055 TTTT-TTAT
1 TTTTCTTAT
43309063 GAAATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 13 0.41
9 15 0.47
10 4 0.12
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCTTAT
Found at i:43309047 original size:18 final size:18
Alignment explanation
Indices: 43309020--43309062 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
43309010 TTGGTATCTC
43309020 TTTTTTATTTTTC-TTAT
1 TTTTTTATTTTTCTTTAT
43309037 TTTTCTTA-TTTTCTTTAT
1 TTTT-TTATTTTTCTTTAT
43309055 TTTTTTAT
1 TTTTTTAT
43309063 GAAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTATTTTTCTTTAT
Found at i:43313185 original size:18 final size:19
Alignment explanation
Indices: 43313149--43313188 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
43313139 GACTCGAACC
43313149 AATAAAGCAAACACATAAA
1 AATAAAGCAAACACATAAA
*
43313168 AATAATGCAAAC-CATAAA
1 AATAAAGCAAACACATAAA
43313186 AAT
1 AAT
43313189 GAAATGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.65, C:0.15, G:0.05, T:0.15
Consensus pattern (19 bp):
AATAAAGCAAACACATAAA
Found at i:43313949 original size:131 final size:131
Alignment explanation
Indices: 43313715--43313987 Score: 456
Period size: 131 Copynumber: 2.1 Consensus size: 131
43313705 GAATAAGCTC
* *
43313715 GCCTTTGTTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTTAATTATTTAGGTTCA
1 GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCA
* *
43313780 ACGCGAGAAAAATTGAAACCCAGTAAGTTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
66 ACGCGAGAAAAATTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
43313845 T
131 T
** *
43313846 GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCGGTTATTTATGTTCA
1 GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCA
* *
43313911 ACGCGAGAAAAATTGAAACCCAATAAATTAGGGCACAACTTCTCGAATTTCTAAATACGGAATAT
66 ACGCGAGAAAAATTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
43313976 T
131 T
*
43313977 GTCTTTATTTT
1 GCCTTTATTTT
43313988 CAAGATTTTC
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (131 bp):
GCCTTTATTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCA
ACGCGAGAAAAATTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATAT
T
Found at i:43314182 original size:18 final size:18
Alignment explanation
Indices: 43314161--43314196 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
43314151 AATATTTAAA
43314161 GGGTA-AACAATAAATAAT
1 GGGTACAACAAT-AATAAT
43314179 GGGTACAACAATAATAAT
1 GGGTACAACAATAATAAT
43314197 AATAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (18 bp):
GGGTACAACAATAATAAT
Found at i:43315215 original size:5 final size:5
Alignment explanation
Indices: 43315205--43315248 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
43315195 TTTCCTTCTT
*
43315205 TAAAA TAAAA TAAAA TAAAA TAAAC T-AAA TAAAA TAATAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAA
43315249 GAAACTACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 27 0.77
6 5 0.14
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:43315253 original size:24 final size:24
Alignment explanation
Indices: 43315207--43315255 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
43315197 TCCTTCTTTA
*
43315207 AAATAAAATAAAATAAAATAAACT
1 AAATAAAATAAAATAAAAGAAACT
43315231 AAATAAAATAATAAT-AAAGAAACT
1 AAATAAAATAA-AATAAAAGAAACT
43315255 A
1 A
43315256 CCTCTCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATAAAATAAAATAAAAGAAACT
Found at i:43332247 original size:21 final size:21
Alignment explanation
Indices: 43332221--43332271 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
43332211 TACGATTTAG
43332221 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
43332242 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
43332263 GGTTTAGGG
1 GGTTTAGGG
43332272 TCTAGGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (21 bp):
GGTTTAGGGGATAAGGGTTGT
Found at i:43332964 original size:251 final size:250
Alignment explanation
Indices: 43332585--43333077 Score: 665
Period size: 251 Copynumber: 2.0 Consensus size: 250
43332575 GGCTAAAGGA
* * * *
43332585 ATTTGAATTTTAGTGGCGTTTTTAATAAAAAAGCCACTGAAGGTATGCTATAGTAGCGTTTTATA
1 ATTTGAAATTTAGTGGCGTTTGTAATAAAAAAGCCACAGAAGGTATACTATAGTAGCGTTTTATA
* *
43332650 TTGAAACGCCACAAATACATAAATGTTTCTCTGTACGAAAACGGCGTCGTTTTCTTAAATGATTT
66 TAGAAACGCCACAAATACATAAATGTTTCTCTGAACGAAAACGGCGTCGTTTTCTTAAATGATTT
* * * * *
43332715 GAACTCCTTACTGGCGTTTTTATTTAAAACGCCGCAAAATGTTATCTTTAGCGGCGTTTGGTAT-
131 GAACTCCTTAATGGCGTTTGTATTTAAAACGCCGC-AAATGTAAGCTTTAGCGGCGTTTAGTATG
*
43332779 AGAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCACTGTTTCGTTACATGG
195 A-AAACGCCACAAATGTGTATTA-AAAATGTTCAGAACGTCACCGTTTCGTTACATGG
43332837 ATTTGAAATTTAGTGGCGTTTGT-ATGAAAAACA-CCACAGAAGGTATAC-AGTAGT-GACGTTT
1 ATTTGAAATTTAGTGGCGTTTGTAAT-AAAAA-AGCCACAGAAGGTATACTA-TAGTAG-CGTTT
* * * * * * *
43332898 T-TATAGAAACGCCGCAAATCCGTATATGTTTTTGTGAACGAAAACGGCGTCGTTTTCTTGAATG
62 TATATAGAAACGCCACAAATACATAAATGTTTCTCTGAACGAAAACGGCGTCGTTTTCTTAAATG
* *
43332962 ATTTGAACTCTTTAATGGCGTTTGTATTTAAAACGCCGCAACTGTAAGCTTTAGCGGCGTTTAGT
127 ATTTGAACTCCTTAATGGCGTTTGTATTTAAAACGCCGCAAATGTAAGCTTTAGCGGCGTTTAGT
* * *
43333027 ATGAAAACGTCACAAATGTGTATTAAAAATTTTCAGAACGTCGCCGTTTCG
192 ATGAAAACGCCACAAATGTGTATTAAAAATGTTCAGAACGTCACCGTTTCG
43333078 GTTGAGGAAC
Statistics
Matches: 212, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
249 23 0.11
250 44 0.21
251 95 0.45
252 49 0.23
253 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (250 bp):
ATTTGAAATTTAGTGGCGTTTGTAATAAAAAAGCCACAGAAGGTATACTATAGTAGCGTTTTATA
TAGAAACGCCACAAATACATAAATGTTTCTCTGAACGAAAACGGCGTCGTTTTCTTAAATGATTT
GAACTCCTTAATGGCGTTTGTATTTAAAACGCCGCAAATGTAAGCTTTAGCGGCGTTTAGTATGA
AAACGCCACAAATGTGTATTAAAAATGTTCAGAACGTCACCGTTTCGTTACATGG
Found at i:43334139 original size:22 final size:22
Alignment explanation
Indices: 43334112--43334157 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
43334102 TCTTTCTACC
43334112 TAGGTTTAATCAGTATAAAATT
1 TAGGTTTAATCAGTATAAAATT
*
43334134 TAGGTTTAATTAGTATAAAATT
1 TAGGTTTAATCAGTATAAAATT
43334156 TA
1 TA
43334158 AGAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (22 bp):
TAGGTTTAATCAGTATAAAATT
Found at i:43335285 original size:19 final size:19
Alignment explanation
Indices: 43335263--43335303 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
43335253 TTTATTAGTA
43335263 AACAATTTTTAAATTACAT
1 AACAATTTTTAAATTACAT
*
43335282 AACAATTTTTAAATTATAT
1 AACAATTTTTAAATTACAT
43335301 AAC
1 AAC
43335304 TTACATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
AACAATTTTTAAATTACAT
Found at i:43335365 original size:17 final size:18
Alignment explanation
Indices: 43335339--43335372 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43335329 ACATTTTTAA
43335339 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
43335356 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
43335373 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:43335483 original size:12 final size:12
Alignment explanation
Indices: 43335466--43335490 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43335456 CATACAATAC
43335466 ATAAACTTGCAT
1 ATAAACTTGCAT
43335478 ATAAACTTGCAT
1 ATAAACTTGCAT
43335490 A
1 A
43335491 ACAATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAAACTTGCAT
Found at i:43335529 original size:19 final size:19
Alignment explanation
Indices: 43335487--43335530 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
43335477 TATAAACTTG
*
43335487 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAAGTA
43335506 CATAACAATTTTTAAAGTA
1 CATAACAATTTTTAAAGTA
*
43335525 TATAAC
1 CATAAC
43335531 TTACATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (19 bp):
CATAACAATTTTTAAAGTA
Found at i:43335540 original size:9 final size:9
Alignment explanation
Indices: 43335526--43335849 Score: 267
Period size: 9 Copynumber: 36.2 Consensus size: 9
43335516 TTTAAAGTAT
43335526 ATAACTTAC
1 ATAACTTAC
43335535 ATAACTTAC
1 ATAACTTAC
*
43335544 ATACCTTAC
1 ATAACTTAC
* *
43335553 ATAAATTAA
1 ATAACTTAC
*
43335562 ATAATTTAC
1 ATAACTTAC
43335571 ATAACTTAC
1 ATAACTTAC
*
43335580 ATAACTTAA
1 ATAACTTAC
43335589 ATAACTTAC
1 ATAACTTAC
43335598 --AACTTAC
1 ATAACTTAC
*
43335605 ATAA--TAA
1 ATAACTTAC
*
43335612 ATAACTTAA
1 ATAACTTAC
* *
43335621 ATTATTTAC
1 ATAACTTAC
43335630 ATAA--TAC
1 ATAACTTAC
43335637 ATAACTTAGTAC
1 ATAAC-T--TAC
*
43335649 ATAATTTAC
1 ATAACTTAC
43335658 ATAA--TAC
1 ATAACTTAC
43335665 ATAACTTAC
1 ATAACTTAC
** *
43335674 ATTATTTTTTC
1 A-TA-ACTTAC
43335685 -TAAATTGCTTAC
1 AT-AA---CTTAC
* *
43335697 ATAAATTAA
1 ATAACTTAC
43335706 ATAACTTAC
1 ATAACTTAC
43335715 ATAACTTAC
1 ATAACTTAC
* *
43335724 ATAAATTAA
1 ATAACTTAC
43335733 ATAACTTAC
1 ATAACTTAC
43335742 ATAACTTAC
1 ATAACTTAC
*
43335751 ATATCTTAC
1 ATAACTTAC
43335760 ATAACTTAC
1 ATAACTTAC
* *
43335769 ATAAATTAA
1 ATAACTTAC
43335778 ATAACTTAC
1 ATAACTTAC
*
43335787 ATTACTTAC
1 ATAACTTAC
*
43335796 ATAAATTAC
1 ATAACTTAC
43335805 ATAACTTAC
1 ATAACTTAC
43335814 ATAACTTAC
1 ATAACTTAC
43335823 ATAA--TAC
1 ATAACTTAC
43335830 ATAACCTT-C
1 ATAA-CTTAC
*
43335839 CTAACTTAC
1 ATAACTTAC
43335848 AT
1 AT
43335850 TATTGTCTAA
Statistics
Matches: 252, Mismatches: 41, Indels: 44
0.75 0.12 0.13
Matches are distributed among these distances:
7 34 0.13
8 3 0.01
9 194 0.77
10 4 0.02
11 4 0.02
12 12 0.05
13 1 0.00
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:43335629 original size:25 final size:25
Alignment explanation
Indices: 43335601--43335680 Score: 106
Period size: 25 Copynumber: 3.1 Consensus size: 25
43335591 AACTTACAAC
*
43335601 TTACATAATAAATAACTTAAATTAT
1 TTACATAATACATAACTTAAATTAT
*
43335626 TTACATAATACATAACTTAGTACATAAT
1 TTACATAATACATAACTTA--A-ATTAT
*
43335654 TTACATAATACATAACTTACATTAT
1 TTACATAATACATAACTTAAATTAT
43335679 TT
1 TT
43335681 TTTCTAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 24 0.50
27 1 0.02
28 23 0.48
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.40
Consensus pattern (25 bp):
TTACATAATACATAACTTAAATTAT
Found at i:43335638 original size:32 final size:32
Alignment explanation
Indices: 43335580--43335640 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
43335570 CATAACTTAC
*
43335580 ATAACTTAAATAACTTACAACTTACATAATAA
1 ATAACTTAAATAACTTACAACATACATAATAA
* *
43335612 ATAACTTAAATTATTTACATA-ATACATAA
1 ATAACTTAAATAACTTACA-ACATACATAA
43335641 CTTAGTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
ATAACTTAAATAACTTACAACATACATAATAA
Found at i:43335660 original size:28 final size:25
Alignment explanation
Indices: 43335601--43335672 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 25
43335591 AACTTACAAC
* *
43335601 TTACATAATAAATAACTTAAATTAT
1 TTACATAATACATAACTTAAATAAT
43335626 TTACATAATACATAACTTAGTACATAAT
1 TTACATAATACATAACTTA--A-ATAAT
43335654 TTACATAATACATAACTTA
1 TTACATAATACATAACTTA
43335673 CATTATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
25 18 0.43
27 1 0.02
28 23 0.55
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.38
Consensus pattern (25 bp):
TTACATAATACATAACTTAAATAAT
Found at i:43339678 original size:103 final size:104
Alignment explanation
Indices: 43339398--43339766 Score: 535
Period size: 104 Copynumber: 3.6 Consensus size: 104
43339388 TGTATATAAA
** * *
43339398 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGTCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
**
43339462 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * * * *
43339501 AGGGGTTACTAAGTGCTAATTCCCCGATTTCATTGGTGGTGTTAAGTGCGATATCCACCTTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
43339566 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * * * *
43339605 AGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGATGCTAAGTACGATATCCAACGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
43339670 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCTG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
43339709 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
43339767 GATAACGGTT
Statistics
Matches: 236, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
103 62 0.26
104 155 0.66
105 19 0.08
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:43343965 original size:21 final size:21
Alignment explanation
Indices: 43343936--43344004 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
43343926 CAACAACTTA
* * *
43343936 AAGCTGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
43343957 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
* *
43343978 AAGCAGATGCCGCAGTGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
43343999 AAGCAG
1 AAGCAG
43344005 CGATAGAAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.33, C:0.19, G:0.42, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:43344490 original size:42 final size:43
Alignment explanation
Indices: 43344426--43344508 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 43
43344416 CAAAACAGTG
43344426 GCATTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGCA
1 GCATTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGCA
* * *
43344469 GCATTTTTG-AACAAGCGCCGCTATAGAACATTACTTTTAG
1 GCATTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAG
43344509 AGGCTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 29 0.78
43 8 0.22
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
GCATTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGCA
Found at i:43344549 original size:41 final size:42
Alignment explanation
Indices: 43344439--43344561 Score: 105
Period size: 42 Copynumber: 3.0 Consensus size: 42
43344429 TTTGTGAAAC
* * **
43344439 AAGCGCCGCTAAAGAACACT-ACTTTTAGCA-GCATTTTTGAAC-
1 AAGCGCCGCTATAGAACA-TGACTTTTAG-AGGCGTTTTT-TTCT
*
43344481 AAGCGCCGCTATAGAACATTACTTTTAGAGGC-TTTTTTTCT
1 AAGCGCCGCTATAGAACATGACTTTTAGAGGCGTTTTTTTCT
*
43344522 AAGCGCCGCTA-ACGAACATGA-TCTTTAGCGGCGTTTTTTT
1 AAGCGCCGCTATA-GAACATGACT-TTTAGAGGCGTTTTTTT
43344562 TTCTGTAAGC
Statistics
Matches: 70, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
40 3 0.04
41 33 0.47
42 34 0.49
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTATAGAACATGACTTTTAGAGGCGTTTTTTTCT
Found at i:43344696 original size:22 final size:23
Alignment explanation
Indices: 43344653--43344696 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
43344643 TAGTGGCGTT
**
43344653 AAAAAGCGCCGCTAAAGGCCTAA
1 AAAAAGCGCCGCTAAAAACCTAA
43344676 AAAAAG-GCCGCTAAAAACCTA
1 AAAAAGCGCCGCTAAAAACCTA
43344697 TTCTACTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.48, C:0.25, G:0.18, T:0.09
Consensus pattern (23 bp):
AAAAAGCGCCGCTAAAAACCTAA
Found at i:43356607 original size:23 final size:23
Alignment explanation
Indices: 43356565--43356614 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
43356555 ACAATTGTCA
**
43356565 AATTTAGACCCTGATATAGAAAC
1 AATTTAGACCCCAATATAGAAAC
* *
43356588 AATTTAGACCCCAATGTAGAAGC
1 AATTTAGACCCCAATATAGAAAC
43356611 AATT
1 AATT
43356615 ATTAAGTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
AATTTAGACCCCAATATAGAAAC
Found at i:43358581 original size:16 final size:18
Alignment explanation
Indices: 43358545--43358581 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43358535 TTTACCCTTG
*
43358545 TTACAAATATTAATTTAT
1 TTACAAATATAAATTTAT
43358563 TTACAAAT-TAAATTT-T
1 TTACAAATATAAATTTAT
43358579 TTA
1 TTA
43358582 TTGTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 6 0.33
18 8 0.44
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTACAAATATAAATTTAT
Found at i:43359709 original size:6 final size:6
Alignment explanation
Indices: 43359689--43359743 Score: 76
Period size: 6 Copynumber: 9.0 Consensus size: 6
43359679 TTTACGTCAA
*
43359689 AATTTT AATTAAT AATTAT AAATTA- AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATT-AT AATTAT -AATTAT AATTAT AATTAT AATTAT AATTAT
43359738 AATTAT
1 AATTAT
43359744 CACGGTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
5 5 0.11
6 30 0.67
7 10 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATTAT
Found at i:43362650 original size:15 final size:14
Alignment explanation
Indices: 43362630--43362668 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
43362620 TAATTTTTAT
43362630 ATAAAATATACAAAA
1 ATAAAA-ATACAAAA
43362645 ATAAAAAATA-AAAA
1 AT-AAAAATACAAAA
43362659 ATAAAAATAC
1 ATAAAAATAC
43362669 TCTCAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
15 5 0.23
16 4 0.18
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (14 bp):
ATAAAAATACAAAA
Found at i:43362667 original size:6 final size:7
Alignment explanation
Indices: 43362630--43362665 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
43362620 TAATTTTTAT
*
43362630 ATAAAAT
1 ATAAAAA
43362637 ATACAAAA
1 ATA-AAAA
43362645 ATAAAAA
1 ATAAAAA
43362652 ATAAAAA
1 ATAAAAA
43362659 ATAAAAA
1 ATAAAAA
43362666 TACTCTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:43364021 original size:8 final size:9
Alignment explanation
Indices: 43364000--43364024 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43363990 ACTTGATTTA
43364000 AAAAATATT
1 AAAAATATT
43364009 AAAAATATT
1 AAAAATATT
43364018 AAAAATA
1 AAAAATA
43364025 AGTAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:43374208 original size:15 final size:16
Alignment explanation
Indices: 43374190--43374227 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
43374180 CAGAAGGGAA
43374190 AAAGAAAGAAAA-AAG
1 AAAGAAAGAAAATAAG
*
43374205 AAAGAAAGAAAATGAG
1 AAAGAAAGAAAATAAG
43374221 AAAGAAA
1 AAAGAAA
43374228 AGCTAAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAATAAG
Found at i:43375196 original size:37 final size:38
Alignment explanation
Indices: 43375100--43375202 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 38
43375090 AACTTCGAGT
* * **
43375100 CGATGAGACACTGGGTGTCAAGGTACTACTTCGGATTAATT
1 CGATGAGACACTGAGTGTCAA--T-TTACTTCGGATTAAGC
*
43375141 CGATGAGACACT-AGGTGTCAATTTACTTCGG-TTTAGC
1 CGATGAGACACTGA-GTGTCAATTTACTTCGGATTAAGC
43375178 CGATGAGACACTGAGTGTCAATTTA
1 CGATGAGACACTGAGTGTCAATTTA
43375203 TTACTTTGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
37 26 0.47
38 9 0.16
39 1 0.02
41 19 0.35
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (38 bp):
CGATGAGACACTGAGTGTCAATTTACTTCGGATTAAGC
Found at i:43378075 original size:25 final size:25
Alignment explanation
Indices: 43378047--43378153 Score: 144
Period size: 25 Copynumber: 4.3 Consensus size: 25
43378037 ACTTTAGCGC
43378047 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
43378072 GCTCTCTGATTATTAGCACATTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
* * *
43378097 GCTCTCTGACTACTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
43378122 GCTCTCTGATT-TTAGCGCGTCAGT
1 GCTCTCTGATTATTAGCACGTTAGT
43378146 GCTCTCTG
1 GCTCTCTG
43378154 TTTAGCACAC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 17 0.24
25 55 0.76
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:43385181 original size:25 final size:25
Alignment explanation
Indices: 43385153--43385259 Score: 144
Period size: 25 Copynumber: 4.3 Consensus size: 25
43385143 ACTTTAGCGC
43385153 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
43385178 GCTCTCTGATTATTAGCACATTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
* * *
43385203 GCTCTCTGACTACTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
43385228 GCTCTCTGATT-TTAGCGCGTCAGT
1 GCTCTCTGATTATTAGCACGTTAGT
43385252 GCTCTCTG
1 GCTCTCTG
43385260 TTTAGCACAC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 17 0.24
25 55 0.76
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:43392377 original size:29 final size:30
Alignment explanation
Indices: 43392343--43392409 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
43392333 CGTAAATTTG
* *
43392343 AAATTTAGTCTCTGTA-TTTTTAT-TTTTA
1 AAATTTAGTCTCTCTACTTTTTATATTTCA
*
43392371 AGAATTTAGTCTTTCTACTTTTTATATTTCA
1 A-AATTTAGTCTCTCTACTTTTTATATTTCA
43392402 AAATTTAG
1 AAATTTAG
43392410 GTCCAACTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 13 0.39
30 14 0.42
31 5 0.15
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.55
Consensus pattern (30 bp):
AAATTTAGTCTCTCTACTTTTTATATTTCA
Found at i:43393685 original size:3 final size:3
Alignment explanation
Indices: 43393677--43393712 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
43393667 TCCATTTGGT
43393677 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
43393713 AGTTTGTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:43397541 original size:118 final size:109
Alignment explanation
Indices: 43397460--43397763 Score: 330
Period size: 109 Copynumber: 2.8 Consensus size: 109
43397450 ATGAATAATT
* * *
43397460 GGATAAAGTCCAACCATGGCAAATGCACACATGTTAGGATTGAAGACCCACACATCATAGATACA
1 GGATAAAATCCAACCATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
* * * * *
43397525 TACGATGAGACTCAAATTTAGGAACCAATAGAGAGCACATTGCA
66 TATGATGAGACTCAAATTTAGGAACCAATACAAAACACATTGAA
* *
43397569 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGGAGACCCACACATCATAAATACA
1 GGATAAAATCCAACCATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
* * * *
43397634 TATGATGGGACTCAAATTTAGGAATCAATACAAAAAAAAATT---
66 TATGATGAGACTCAAATTTAGGAACCAATAC-AAAACACATTGAA
* * ** * * * * * * *
43397676 GGATAAAACCCATCCATAACAAATG--TACATATTAAGACTAAAGACTCGCACATCACAAATACA
1 GGATAAAATCCAACCATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
*
43397739 TATGATAAGACTCAAATTTAGGAAC
66 TATGATGAGACTCAAATTTAGGAAC
43397764 TGGATAAAAT
Statistics
Matches: 165, Mismatches: 29, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
105 52 0.32
107 20 0.12
109 87 0.53
110 6 0.04
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (109 bp):
GGATAAAATCCAACCATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
TATGATGAGACTCAAATTTAGGAACCAATACAAAACACATTGAA
Found at i:43397651 original size:109 final size:109
Alignment explanation
Indices: 43397460--43397663 Score: 336
Period size: 109 Copynumber: 1.9 Consensus size: 109
43397450 ATGAATAATT
* * *
43397460 GGATAAAGTCCAACCATGGCAAATGCACACATGTTAGGATTGAAGACCCACACATCATAGATACA
1 GGATAAAATCCAACCATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
43397525 TACGATGAGACTCAAATTTAGGAACCAATAGAGAGCACATTGCA
66 TACGATGAGACTCAAATTTAGGAACCAATAGAGAGCACATTGCA
* *
43397569 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGGAGACCCACACATCATAAATACA
1 GGATAAAATCCAACCATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
* * *
43397634 TATGATGGGACTCAAATTTAGGAATCAATA
66 TACGATGAGACTCAAATTTAGGAACCAATA
43397664 CAAAAAAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 87 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (109 bp):
GGATAAAATCCAACCATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
TACGATGAGACTCAAATTTAGGAACCAATAGAGAGCACATTGCA
Found at i:43400009 original size:4 final size:4
Alignment explanation
Indices: 43399990--43400036 Score: 76
Period size: 4 Copynumber: 11.8 Consensus size: 4
43399980 TTCCCTCTAT
* *
43399990 TTTA TCTA TATA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
43400037 CAAGAAGTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:43401047 original size:31 final size:31
Alignment explanation
Indices: 43400998--43401056 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
43400988 GAGGGGCTAC
*
43400998 TTAAAATTTTCAAAATTTTCAG-GGATTTAA
1 TTAAAATTTTAAAAATTTTCAGAGGATTTAA
*
43401028 TTAAAATTTTTAAAAATTTTGAGAGGATT
1 TTAAAA-TTTTAAAAATTTTCAGAGGATT
43401057 AAGGAGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 14 0.56
32 5 0.20
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (31 bp):
TTAAAATTTTAAAAATTTTCAGAGGATTTAA
Found at i:43401141 original size:31 final size:32
Alignment explanation
Indices: 43401061--43401142 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 32
43401051 AGGATTAAGG
43401061 AGAATTGTC-AAAATTTTTGAAAGGTCTAATTA
1 AGAATT-TCTAAAATTTTTGAAAGGTCTAATTA
* * * * * *
43401093 AAAATTT-TAGAACTTTTGGAAGG-CTTATTT
1 AGAATTTCTAAAATTTTTGAAAGGTCTAATTA
43401123 AGAATTTCTAAAATTTTTGA
1 AGAATTTCTAAAATTTTTGA
43401143 GGGGGAGTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
30 11 0.29
31 22 0.58
32 5 0.13
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (32 bp):
AGAATTTCTAAAATTTTTGAAAGGTCTAATTA
Found at i:43403957 original size:77 final size:78
Alignment explanation
Indices: 43403815--43403970 Score: 242
Period size: 77 Copynumber: 2.0 Consensus size: 78
43403805 ATTTTGGATT
* *
43403815 TTTTTTATGTTTTCATTTTTACGTTAGCCAATCAGTGATAAAAAAATCATAATTAAGTGATCATT
1 TTTTTGATGTTTTCATTTTTACGTTAGCCAATCAGTGATAAAAAAATCATAATTAAGTGACCATT
*
43403880 TTGTAACTTTTCA
66 TTGAAACTTTTCA
* * *
43403893 TTTTTGATGTTTTTATTTTTATGTTAGCCAATTAGTGAT-AAAAAATCATAATTAAGTGACCATT
1 TTTTTGATGTTTTCATTTTTACGTTAGCCAATCAGTGATAAAAAAATCATAATTAAGTGACCATT
*
43403957 TTGAAATTTTTCA
66 TTGAAACTTTTCA
43403970 T
1 T
43403971 AGTTAAGTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
77 36 0.51
78 35 0.49
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (78 bp):
TTTTTGATGTTTTCATTTTTACGTTAGCCAATCAGTGATAAAAAAATCATAATTAAGTGACCATT
TTGAAACTTTTCA
Found at i:43404000 original size:57 final size:58
Alignment explanation
Indices: 43403932--43404045 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 58
43403922 AATTAGTGAT
* *
43403932 AAAAAATCATAATTAAGTGACCATTTT-GAAATTTTTCATAGTT-AAGTGATAAAAAAG
1 AAAAAACCATAATTAAATGACCATTTTAGAAATTTTTCATAGTTGAA-TGATAAAAAAG
* *
43403989 AAAAAACCATAATTAAATGACTATTTTATAAATTTTTCATAGTTGAATGATAAAAAA
1 AAAAAACCATAATTAAATGACCATTTTAGAAATTTTTCATAGTTGAATGATAAAAAA
43404046 ATCATAATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 24 0.47
58 25 0.49
59 2 0.04
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (58 bp):
AAAAAACCATAATTAAATGACCATTTTAGAAATTTTTCATAGTTGAATGATAAAAAAG
Found at i:43410828 original size:23 final size:21
Alignment explanation
Indices: 43410798--43410865 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
43410788 TTCACAAACA
43410798 AATTCCTTTCAAAAATTCTCTC
1 AATTCC-TTCAAAAATTCTCTC
* *
43410820 AATTCCCTTGAAAATTTCTCTC
1 AATT-CCTTCAAAAATTCTCTC
*
43410842 AATTTCCTTCCAAAATTCTCTC
1 AA-TTCCTTCAAAAATTCTCTC
43410864 AA
1 AA
43410866 ACTCTCAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.31, C:0.28, G:0.01, T:0.40
Consensus pattern (21 bp):
AATTCCTTCAAAAATTCTCTC
Found at i:43410871 original size:30 final size:30
Alignment explanation
Indices: 43410837--43410895 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
43410827 TTGAAAATTT
* *
43410837 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
43410867 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
43410896 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:43410906 original size:21 final size:22
Alignment explanation
Indices: 43410867--43410908 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43410857 TTCTCTCAAA
43410867 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
43410889 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
43410909 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:43410985 original size:18 final size:18
Alignment explanation
Indices: 43410964--43411012 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
43410954 TTTAAGAAAA
* *
43410964 TTTTAAAATTTTTTATTT
1 TTTTAAAATTTTTAAATT
*
43410982 TTTTAAATAATTTTAAATT
1 TTTTAAA-ATTTTTAAATT
*
43411001 TTTTAATATTTT
1 TTTTAAAATTTT
43411013 CAACAATGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAAATTTTTAAATT
Found at i:43410999 original size:27 final size:29
Alignment explanation
Indices: 43410951--43411005 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
43410941 TTAAATTTCA
43410951 TTTTTTAAGAAAATTTTAAAATTTTTTAT
1 TTTTTTAAGAAAATTTTAAAATTTTTTAT
*
43410980 TTTTTTAA-ATAATTTT-AAATTTTTTA
1 TTTTTTAAGAAAATTTTAAAATTTTTTA
43411006 ATATTTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 7 0.28
29 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTTTAAGAAAATTTTAAAATTTTTTAT
Found at i:43411012 original size:28 final size:29
Alignment explanation
Indices: 43410952--43411012 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
43410942 TAAATTTCAT
*
43410952 TTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTAAGAAAATTTTAAAATTTTTTATA
*
43410981 TTTTTAA-ATAATTTT-AAATTTTTTAATA
1 TTTTTAAGAAAATTTTAAAATTTTTT-ATA
43411009 TTTT
1 TTTT
43411013 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.31
28 13 0.45
29 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAAATTTTTTATA
Found at i:43411157 original size:24 final size:23
Alignment explanation
Indices: 43411102--43411157 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
43411092 TATATTTTAA
*
43411102 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
43411125 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
43411151 ATTTTTT
1 ATTTTTT
43411158 GTTATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:43413305 original size:23 final size:24
Alignment explanation
Indices: 43413271--43413345 Score: 91
Period size: 23 Copynumber: 3.2 Consensus size: 24
43413261 ACATTATTTG
*
43413271 ATTAAAATCCCTAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACTTA
*
43413294 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCTAACTTA
* * *
43413317 ATTAAAAACCCAAACCCAAACCTA
1 ATTAAAAACCCTAACCCTAACTTA
43413341 ATTAA
1 ATTAA
43413346 TTAAATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 3 0.07
23 30 0.68
24 11 0.25
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (24 bp):
ATTAAAAACCCTAACCCTAACTTA
Found at i:43413353 original size:33 final size:32
Alignment explanation
Indices: 43413310--43413893 Score: 499
Period size: 33 Copynumber: 18.9 Consensus size: 32
43413300 AACCCTAACC
* * *
43413310 TAATTTAATTAAAAACCCAAACCCAAACCTAAT
1 TAATTAAATTAAAAACCCTAA-CCTAACCTAAT
* *
43413343 TAATTAAATTAAAAACCCTAAACTAACTTAATT
1 TAATTAAATTAAAAACCCTAACCTAACCTAA-T
* * *
43413376 TAAAT-AATTAAAAACCCAAACCCAAACCTAACT
1 TAATTAAATTAAAAACCCTAA-CCTAACCTAA-T
* **** *
43413409 TAACTTAATTTAAATAATTAAAAACCCTAACCCTAACC
1 TAA-TTAAATTAAA-AA-CCCTAA-CCTAA-CCTAA-T
*
43413447 TAATTTAATTAAAAACCCTAACCTAACCTAA-
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT
*
43413478 T--TT-AATT-AAAA-GC---CCTAACCTAA-
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT
*
43413501 T--TT-AATTAAAAACCCAAACCCTAACCTAAT
1 TAATTAAATTAAAAACCCTAA-CCTAACCTAAT
*
43413531 TAATTAAATTAAAAACCCTAACCTAACTTAATT
1 TAATTAAATTAAAAACCCTAACCTAACCTAA-T
43413564 TAATTAAATTAAAAACCCTAACCTAACCTAA-
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT
* *
43413595 T--TT-AATTAAAAACCCAAACCCAAACCTAAT
1 TAATTAAATTAAAAACCCTAA-CCTAACCTAAT
*
43413625 TAATTAAATTAAAAACCCTAACCTAACTTAAT
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT
*
43413657 TTA-TATAATTAAAAACCCTAACCCTAACCTAA-
1 TAATTA-AATTAAAAACCCTAA-CCTAACCTAAT
43413689 T--TT-AATTAAAAACCCTAACCTAACCTAA-
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT
* *
43413717 T--TT-AATTAAAAACCCAAACCCAAACCTAAT
1 TAATTAAATTAAAAACCCTAA-CCTAACCTAAT
*
43413747 TAATTAAATTAAAAACCCTAACCTAACTTAATT
1 TAATTAAATTAAAAACCCTAACCTAACCTAA-T
43413780 TAATTAAATTAAAAACCCTAACCTAA--T--T
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT
43413808 TAATTAAATTAAAAACCCTAACCTAACCTAA-
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT
*
43413839 T--TT-AATTAAAAACCCAAACCCTAACCTAA-
1 TAATTAAATTAAAAACCCTAA-CCTAACCTAAT
43413868 T--TT-AATTAAAAACCCTAACCTAACCT
1 TAATTAAATTAAAAACCCTAACCTAACCT
43413894 TGGTGCATCG
Statistics
Matches: 471, Mismatches: 43, Indels: 79
0.79 0.07 0.13
Matches are distributed among these distances:
23 17 0.04
24 4 0.01
25 1 0.00
26 1 0.00
27 4 0.01
28 94 0.20
29 76 0.16
30 4 0.01
31 7 0.01
32 71 0.15
33 149 0.32
34 6 0.01
35 8 0.02
36 4 0.01
37 16 0.03
38 9 0.02
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (32 bp):
TAATTAAATTAAAAACCCTAACCTAACCTAAT
Found at i:43413365 original size:28 final size:28
Alignment explanation
Indices: 43413293--43413891 Score: 445
Period size: 28 Copynumber: 19.8 Consensus size: 28
43413283 AACCCTACTT
*
43413293 AATTAAAAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAACTTAATTA
*
43413321 AA--AACCCAAACCCAAACCTAA-TTAATTA
1 AATTAA---AAACCCTAACCTAACTTAATTA
*
43413349 AATTAAAAACCCTAAACTAACTTAATTTAAA
1 AATTAAAAACCCTAACCTAACTTAA-TT--A
*
43413380 TAATTAAAAACCCAAACCCAAACCTAACTTAACTTAA
1 -AATT---AA---AAACCCTAACCTAACTTAA-TT-A
* * *
43413417 TTTAAATAATTAAAAACCCTAACCCTAACCTAATTT
1 ---AAT----TAAAAACCCTAA-CCTAACTTAATTA
* *
43413453 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAACTTAATTA
* *
43413481 AATTAAAAGCCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAACTTAATTA
43413509 AA--AACCCAAACCCTAACCTAA-TTAATTA
1 AATTAA---AAACCCTAACCTAACTTAATTA
43413537 AATTAAAAACCCTAACCTAACTTAATTTAATTA
1 AATTAAAAACCCTAACCTAAC-----TTAATTA
* *
43413570 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAACTTAATTA
* *
43413598 AATTAAAAACCCAAACCCAAACCTAATTAATTA
1 AATTAAAAACCCTAA-CCTAA-C---TTAATTA
43413631 AATTAAAAACCCTAACCTAACTTAATTTATA
1 AATTAAAAACCCTAACCTAACTTAA--T-TA
* *
43413662 TAATTAAAAACCCTAACCCTAACCTAATTT
1 -AATTAAAAACCCTAA-CCTAACTTAATTA
* *
43413692 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAACTTAATTA
* *
43413720 AATTAAAAACCCAAACCCAAACCTAATTAATTA
1 AATTAAAAACCCTAA-CCTAA-C---TTAATTA
43413753 AATTAAAAACCCTAACCTAACTTAATTTAATTA
1 AATTAAAAACCCTAACCTAAC-----TTAATTA
*
43413786 AATTAAAAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAACTTAATTA
* *
43413814 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAACTTAATTA
* * *
43413842 AATTAAAAACCCAAACCCTAACCTAATTT
1 AATTAAAAACCCTAA-CCTAACTTAATTA
43413871 AATTAAAAACCCTAACCTAAC
1 AATTAAAAACCCTAACCTAAC
43413892 CTTGGTGCAT
Statistics
Matches: 479, Mismatches: 40, Indels: 104
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.01
27 26 0.05
28 165 0.34
29 90 0.19
30 8 0.02
31 6 0.01
32 27 0.06
33 105 0.22
35 2 0.00
37 12 0.03
38 28 0.06
39 3 0.01
40 2 0.00
43 1 0.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (28 bp):
AATTAAAAACCCTAACCTAACTTAATTA
Found at i:43413407 original size:38 final size:38
Alignment explanation
Indices: 43413355--43413456 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 38
43413345 ATTAAATTAA
43413355 AAACCCTAAA-CTAACTTAATTTAAATAATTAAAAACCC
1 AAACCC-AAACCTAACTTAATTTAAATAATTAAAAACCC
43413393 AAACCCAAACCTAACTTAACTTAATTTAAATAATTAAAAACCC
1 AAACCCAAA-C---C-TAACTTAATTTAAATAATTAAAAACCC
* * *
43413436 TAACCCTAACCTAATTTAATT
1 AAACCCAAACCTAACTTAATT
43413457 AAAAACCCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
37 3 0.05
38 15 0.27
39 1 0.02
42 2 0.04
43 34 0.62
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (38 bp):
AAACCCAAACCTAACTTAATTTAAATAATTAAAAACCC
Found at i:43413413 original size:43 final size:43
Alignment explanation
Indices: 43413366--43413458 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
43413356 AACCCTAAAC
43413366 TAACTTAATTTAAATAATTAAAAACCCAAACCCAAACCTAACT
1 TAACTTAATTTAAATAATTAAAAACCCAAACCCAAACCTAACT
* * *
43413409 TAACTTAATTTAAATAATTAAAAACCCTAACCCTAACCTAATT
1 TAACTTAATTTAAATAATTAAAAACCCAAACCCAAACCTAACT
43413452 TAA-TTAA
1 TAACTTAA
43413459 AAACCCTAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.30
Consensus pattern (43 bp):
TAACTTAATTTAAATAATTAAAAACCCAAACCCAAACCTAACT
Found at i:43413464 original size:23 final size:23
Alignment explanation
Indices: 43413437--43413520 Score: 105
Period size: 23 Copynumber: 3.4 Consensus size: 23
43413427 TAAAAACCCT
43413437 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
43413460 AACCCTAACCTAACCTAATTTAATTAAA
1 AA--C---CCTAACCTAATTTAATTAAA
*
43413488 AGCCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
43413511 AACCCAAACC
1 AACCCTAACC
43413521 CTAACCTAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
23 30 0.57
25 1 0.02
26 1 0.02
28 21 0.40
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:43413696 original size:122 final size:121
Alignment explanation
Indices: 43413402--43413891 Score: 666
Period size: 122 Copynumber: 4.1 Consensus size: 121
43413392 CAAACCCAAA
* *
43413402 CCTAACTTAACTTAATTTAAATAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 CCTAACCTAACTTAATTTATATAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTA
* * * ** ***
43413467 ACCTAACCTAATTTAATTAAAAGCCCTAA-CCTAATTTAATTAA--AAA-CCCAAAC
65 ACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAAC
*
43413520 CCTAACCTAA-TTAA--T-TA-AATTAAAAACCCTAACCTAACTTAATTTAATTAAATTAAAAAC
1 CCTAACCTAACTTAATTTATATAATTAAAAACCCTAACCTAACCTAA--T--TT-AATTAAAAAC
43413580 CCTAACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAAC
61 CCTAACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAAC
43413641 CCTAACCTAACTTAATTTATATAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 CCTAACCTAACTTAATTTATATAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTA
43413706 ACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAAC
65 ACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAAC
** *
43413763 CCTAACCTAACTTAATTTA-ATTAAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCT
1 CCTAACCTAACTTAATTTATA-T-AATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCT
*
43413827 AACCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAA-T--TT-AATTAAAAAC
64 AACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAAC
43413881 CCTAACCTAAC
1 CCTAACCTAAC
43413892 CTTGGTGCAT
Statistics
Matches: 339, Mismatches: 16, Indels: 34
0.87 0.04 0.09
Matches are distributed among these distances:
112 9 0.03
113 15 0.04
114 2 0.01
115 1 0.00
116 2 0.01
117 45 0.13
118 41 0.12
119 2 0.01
120 3 0.01
121 16 0.05
122 158 0.47
123 17 0.05
124 1 0.00
125 3 0.01
126 15 0.04
127 9 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (121 bp):
CCTAACCTAACTTAATTTATATAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA
CCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAAC
Found at i:43413892 original size:28 final size:28
Alignment explanation
Indices: 43413423--43413893 Score: 502
Period size: 33 Copynumber: 15.9 Consensus size: 28
43413413 TTAATTTAAA
43413423 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAA-CCTAACCTAATT
43413452 TAATTAAAAACCCTAACCTAACCTAATT
1 TAATTAAAAACCCTAACCTAACCTAATT
*
43413480 TAATT-AAAA-GC---CCTAACCTAATT
1 TAATTAAAAACCCTAACCTAACCTAATT
*
43413503 TAATTAAAAACCCAAACCCTAACCTAATTAAT
1 TAATTAAAAACCCTAA-CCTAACCTAA-T--T
*
43413535 TAAATTAAAAACCCTAACCTAACTTAATTTAAT
1 T-AATTAAAAACCCTAACCTAACCTAA--T--T
43413568 TAAATTAAAAACCCTAACCTAACCTAATT
1 T-AATTAAAAACCCTAACCTAACCTAATT
* *
43413597 TAATTAAAAACCCAAACCCAAACCTAATTAAT
1 TAATTAAAAACCCTAA-CCTAACCTAA-T--T
*
43413629 TAAATTAAAAACCCTAACCTAACTTAATTTAT
1 T-AATTAAAAACCCTAACCTAACCTAA--T-T
43413661 ATAATTAAAAACCCTAACCCTAACCTAATT
1 -TAATTAAAAACCCTAA-CCTAACCTAATT
43413691 TAATTAAAAACCCTAACCTAACCTAATT
1 TAATTAAAAACCCTAACCTAACCTAATT
* *
43413719 TAATTAAAAACCCAAACCCAAACCTAATTAAT
1 TAATTAAAAACCCTAA-CCTAACCTAA-T--T
*
43413751 TAAATTAAAAACCCTAACCTAACTTAATTTAAT
1 T-AATTAAAAACCCTAACCTAACCTAA--T--T
**
43413784 TAAATTAAAAACCCTAACCTAATTTAATT
1 T-AATTAAAAACCCTAACCTAACCTAATT
*
43413813 AAATTAAAAACCCTAACCTAACCTAATT
1 TAATTAAAAACCCTAACCTAACCTAATT
*
43413841 TAATTAAAAACCCAAACCCTAACCTAATT
1 TAATTAAAAACCCTAA-CCTAACCTAATT
43413870 TAATTAAAAACCCTAACCTAACCT
1 TAATTAAAAACCCTAACCTAACCT
43413894 TGGTGCATCG
Statistics
Matches: 393, Mismatches: 23, Indels: 53
0.84 0.05 0.11
Matches are distributed among these distances:
23 17 0.04
24 4 0.01
25 1 0.00
26 1 0.00
27 4 0.01
28 105 0.27
29 90 0.23
30 4 0.01
31 3 0.01
32 48 0.12
33 116 0.30
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (28 bp):
TAATTAAAAACCCTAACCTAACCTAATT
Found at i:43417447 original size:23 final size:23
Alignment explanation
Indices: 43417421--43417465 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
43417411 AATGAACTTG
*
43417421 TTCGTAAATATTAAATAAACATA
1 TTCGTAAATATTAAACAAACATA
43417444 TTCGTAAATATTAAACAAACAT
1 TTCGTAAATATTAAACAAACAT
43417466 GTTGACAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (23 bp):
TTCGTAAATATTAAACAAACATA
Found at i:43417553 original size:18 final size:18
Alignment explanation
Indices: 43417527--43417561 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43417517 TAATAAGTAA
* *
43417527 TAAATAAACAAATAATAG
1 TAAAAAAACAAAAAATAG
43417545 TAAAAAAACAAAAAATA
1 TAAAAAAACAAAAAATA
43417562 AATATAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (18 bp):
TAAAAAAACAAAAAATAG
Found at i:43418089 original size:10 final size:10
Alignment explanation
Indices: 43418070--43418104 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
43418060 GAGTGAGATG
43418070 GAATTCGAATC
1 GAATT-GAATC
43418081 GAATTGAATC
1 GAATTGAATC
43418091 GAATTGAATC
1 GAATTGAATC
43418101 GAAT
1 GAAT
43418105 ATATTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (10 bp):
GAATTGAATC
Found at i:43419651 original size:19 final size:19
Alignment explanation
Indices: 43419608--43419651 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
43419598 GATAGTAATA
* *
43419608 TATAAAAATTAAAAATTGT
1 TATAAAAATTAAAAAGTAT
43419627 TATAAAAATTTAAAAAGTAT
1 TATAAAAA-TTAAAAAGTAT
43419647 T-TAAA
1 TATAAA
43419652 TTTCAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TATAAAAATTAAAAAGTAT
Found at i:43419719 original size:23 final size:22
Alignment explanation
Indices: 43419685--43419750 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 22
43419675 CTTGAATTTT
43419685 AAATAATTTTTAGAATTTTATAAAA
1 AAAT-ATTTTTA-AATTTT-TAAAA
43419710 AAATA-TTTTAAACTTTTTAAAA
1 AAATATTTTTAAA-TTTTTAAAA
*
43419732 ATATATTTTTACAATTTTT
1 AAATATTTTTA-AATTTTT
43419751 CTTATATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
22 11 0.30
23 19 0.51
24 3 0.08
25 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (22 bp):
AAATATTTTTAAATTTTTAAAA
Found at i:43419750 original size:24 final size:24
Alignment explanation
Indices: 43419685--43419773 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 24
43419675 CTTGAATTTT
* *
43419685 AAATA-ATTTTTAGAATTTTATAA
1 AAATATATTTTTACAATTTTTTAA
* *
43419708 AAAAATA-TTTTA-AACTTTTTAA
1 AAATATATTTTTACAATTTTTTAA
43419730 AAATATATTTTTACAATTTTTCT--
1 AAATATATTTTTACAATTTTT-TAA
*
43419753 -TATATATTTTTACAATTTTTT
1 AAATATATTTTTACAATTTTTT
43419774 TTATATTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.02
22 33 0.59
23 14 0.25
24 7 0.12
25 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (24 bp):
AAATATATTTTTACAATTTTTTAA
Found at i:43419780 original size:20 final size:22
Alignment explanation
Indices: 43419732--43419784 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
43419722 CTTTTTAAAA
43419732 ATATATTTTTACAATTTTTCTT
1 ATATATTTTTACAATTTTTCTT
*
43419754 ATATATTTTTACAATTTTTTTT
1 ATATATTTTTACAATTTTTCTT
43419776 ATAT-TTTTT
1 ATATATTTTT
43419785 CAAGTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (22 bp):
ATATATTTTTACAATTTTTCTT
Found at i:43421876 original size:18 final size:18
Alignment explanation
Indices: 43421850--43421886 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
43421840 CGCCTTCTTC
43421850 TCCCCTTTCCCTTCCCCT
1 TCCCCTTTCCCTTCCCCT
*
43421868 TCCCTTTTCCCTTCCCCT
1 TCCCCTTTCCCTTCCCCT
43421886 T
1 T
43421887 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCCCTTTCCCTTCCCCT
Found at i:43422005 original size:25 final size:25
Alignment explanation
Indices: 43421946--43421995 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
43421936 CAGGTAAGGC
43421946 TCCTTCTTCTTCTTCCGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
43421971 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
43421996 ATTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:43422199 original size:11 final size:11
Alignment explanation
Indices: 43422183--43422208 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43422173 TTGCTGGATG
43422183 ATATTTTGGTT
1 ATATTTTGGTT
43422194 ATATTTTGGTT
1 ATATTTTGGTT
43422205 ATAT
1 ATAT
43422209 ACAGATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
ATATTTTGGTT
Found at i:43424533 original size:22 final size:20
Alignment explanation
Indices: 43424490--43424528 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43424480 TAATTTAAAA
43424490 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
43424510 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
43424529 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:43424665 original size:20 final size:20
Alignment explanation
Indices: 43424627--43424666 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43424617 AATAATTTCC
* *
43424627 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
43424647 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
43424667 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:43426045 original size:16 final size:16
Alignment explanation
Indices: 43426024--43426055 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43426014 CTCATATTTG
43426024 AACCTATTAACACCAA
1 AACCTATTAACACCAA
43426040 AACCTATTAACACCAA
1 AACCTATTAACACCAA
43426056 GTTGATGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
AACCTATTAACACCAA
Found at i:43427797 original size:29 final size:29
Alignment explanation
Indices: 43427760--43427845 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
43427750 ATCAGAAAGT
* *
43427760 CAAACCTTTCAAAGTGCTCCAATAAGGGC
1 CAAACCTTTCAAAGTGCTCAAATAAGAGC
* * *
43427789 CAAAACTTTGAGAGTGCTCAAATAAGAGC
1 CAAACCTTTCAAAGTGCTCAAATAAGAGC
* *
43427818 CAAACCTTTTTGAAATTGCTCAAATAAG
1 CAAACC--TTTCAAAGTGCTCAAATAAG
43427846 GGCTTCTCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 29 0.62
31 18 0.38
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (29 bp):
CAAACCTTTCAAAGTGCTCAAATAAGAGC
Found at i:43430379 original size:16 final size:16
Alignment explanation
Indices: 43430356--43430396 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
43430346 ATTTTCATCT
43430356 TTCT-ATTTTTCTACCC
1 TTCTAATTTTTC-ACCC
*
43430372 TTC-AATTTTTCATCC
1 TTCTAATTTTTCACCC
43430387 TTCTAATTTT
1 TTCTAATTTT
43430397 CTTTTCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (16 bp):
TTCTAATTTTTCACCC
Found at i:43431870 original size:11 final size:11
Alignment explanation
Indices: 43431854--43431885 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
43431844 ATTTCTTTAA
43431854 TTTTTATGAAT
1 TTTTTATGAAT
43431865 TTTTTAT-AAT
1 TTTTTATGAAT
43431875 TTTTT-TGAAT
1 TTTTTATGAAT
43431885 T
1 T
43431886 ACGATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.05
10 12 0.60
11 7 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (11 bp):
TTTTTATGAAT
Found at i:43432563 original size:15 final size:15
Alignment explanation
Indices: 43432543--43432572 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43432533 TAGTTGGGCC
43432543 TTGCCATGCAATTGT
1 TTGCCATGCAATTGT
43432558 TTGCCATGCAATTGT
1 TTGCCATGCAATTGT
43432573 AGATCAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
TTGCCATGCAATTGT
Found at i:43437360 original size:43 final size:43
Alignment explanation
Indices: 43437299--43437390 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
43437289 TGTGGCAAAT
43437299 ATATTATCATACATGTAATGTCATGTCATCTTATTATTTCCAC
1 ATATTATCATACATGTAATGTCATGTCATCTTATTATTTCCAC
* * *
43437342 ATATTATCATATATGTAATGTCGTGTCATCTTGTTATTTCCAC
1 ATATTATCATACATGTAATGTCATGTCATCTTATTATTTCCAC
43437385 ATATTA
1 ATATTA
43437391 CTCACTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (43 bp):
ATATTATCATACATGTAATGTCATGTCATCTTATTATTTCCAC
Found at i:43441484 original size:29 final size:30
Alignment explanation
Indices: 43441425--43441484 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
43441415 CTATATATAT
* * **
43441425 TTAGTTTAAGATTTAATTAAGTTAATTTAA
1 TTAGTTTAAGACTTAATTAAATTAAACTAA
43441455 TTAGTTTAAG-CTTAATTAAATTAAACTAA
1 TTAGTTTAAGACTTAATTAAATTAAACTAA
43441484 T
1 T
43441485 CATACATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (30 bp):
TTAGTTTAAGACTTAATTAAATTAAACTAA
Found at i:43444906 original size:16 final size:16
Alignment explanation
Indices: 43444885--43444918 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43444875 TCAATGTTAC
43444885 TTGAAATGAAAACCAA
1 TTGAAATGAAAACCAA
* *
43444901 TTGAAATGCAAATCAA
1 TTGAAATGAAAACCAA
43444917 TT
1 TT
43444919 CAAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (16 bp):
TTGAAATGAAAACCAA
Found at i:43451010 original size:12 final size:12
Alignment explanation
Indices: 43450993--43451017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43450983 GGTGTTCATT
43450993 CGGTTAACCGAC
1 CGGTTAACCGAC
43451005 CGGTTAACCGAC
1 CGGTTAACCGAC
43451017 C
1 C
43451018 CAAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:43451191 original size:9 final size:9
Alignment explanation
Indices: 43451177--43451256 Score: 90
Period size: 9 Copynumber: 8.8 Consensus size: 9
43451167 TTTGGTTAAA
43451177 AATTACCCG
1 AATTACCCG
*
43451186 AATTACCTG
1 AATTACCCG
43451195 AATTACCCG
1 AATTACCCG
43451204 AATTACCCG
1 AATTACCCG
*
43451213 AATTAACCG
1 AATTACCCG
**
43451222 AATTAATCG
1 AATTACCCG
43451231 AATTA-CCG
1 AATTACCCG
*
43451239 AAAAATACCCG
1 --AATTACCCG
43451250 AATTACC
1 AATTACC
43451257 TGATTTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
8 2 0.03
9 52 0.85
10 4 0.07
11 3 0.05
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:43451421 original size:13 final size:13
Alignment explanation
Indices: 43451403--43451432 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
43451393 TTTTAGTTTT
43451403 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
43451416 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
43451429 ATTG
1 ATTG
43451433 AGTTTGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:43454018 original size:29 final size:29
Alignment explanation
Indices: 43453948--43454027 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
43453938 TTTACAATTG
* *
43453948 TTGAAAATTGTAATTAGATCTTCTAAAGGAT
1 TTGAAAATTTTAATTAGA-CCTCTAAA-GAT
43453979 TTGAAAATTTTAATTAGACCTCTAAA-AT
1 TTGAAAATTTTAATTAGACCTCTAAAGAT
*
43454007 TATGAAAATTTTCATTA-ACCT
1 T-TGAAAATTTTAATTAGACCT
43454028 TCTCCCCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.16
29 14 0.31
30 7 0.16
31 17 0.38
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (29 bp):
TTGAAAATTTTAATTAGACCTCTAAAGAT
Found at i:43455328 original size:32 final size:32
Alignment explanation
Indices: 43455287--43455352 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
43455277 AAATAGTAGG
43455287 ATTACTTTAGAATCCCTTTAGAAATTTTAAGA
1 ATTACTTTAGAATCCCTTTAGAAATTTTAAGA
43455319 ATTACTTTAGAATCCCTTTAGAAATTTTAAGA
1 ATTACTTTAGAATCCCTTTAGAAATTTTAAGA
43455351 AT
1 AT
43455353 ACAAATTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (32 bp):
ATTACTTTAGAATCCCTTTAGAAATTTTAAGA
Found at i:43472141 original size:13 final size:13
Alignment explanation
Indices: 43472116--43472174 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 13
43472106 CCTATAGGTG
43472116 TAATAATAATATA
1 TAATAATAATATA
43472129 TAAT-ATAAT-TA
1 TAATAATAATATA
*
43472140 TAATTATAATA-A
1 TAATAATAATATA
*
43472152 CAATAATTAATAATA
1 TAATAA-TAAT-ATA
*
43472167 CAATAATA
1 TAATAATA
43472175 GTGAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 6 0.15
12 15 0.38
13 8 0.21
14 3 0.08
15 7 0.18
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:43472151 original size:15 final size:16
Alignment explanation
Indices: 43472139--43472173 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
43472129 TAATATAATT
43472139 ATAATT-ATAATAACA
1 ATAATTAATAATAACA
43472154 ATAATTAATAAT-ACA
1 ATAATTAATAATAACA
43472169 ATAAT
1 ATAAT
43472174 AGTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTAATAATAACA
Found at i:43472174 original size:3 final size:3
Alignment explanation
Indices: 43472116--43472166 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
43472106 CCTATAGGTG
* * *
43472116 TAA TAA TAA TATA TAA T-A TAA TTA TAA TTA TAA TAA CAA TAA TTAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
43472162 TAA TA
1 TAA TA
43472167 CAATAATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:43481988 original size:19 final size:19
Alignment explanation
Indices: 43481964--43482001 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43481954 ACAATGCCTA
43481964 GAACTGCACATAGTCTTTC
1 GAACTGCACATAGTCTTTC
43481983 GAACTGCACATAGTCTTTC
1 GAACTGCACATAGTCTTTC
43482002 TCCAACCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
GAACTGCACATAGTCTTTC
Found at i:43489052 original size:19 final size:19
Alignment explanation
Indices: 43489022--43489064 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
43489012 TCACTTTCAG
*
43489022 ATTTTTTAAAAAATTTTATA
1 ATTTTTTAAAAAATTATA-A
43489042 ATTTTTT-AAAAATTATAA
1 ATTTTTTAAAAAATTATAA
43489060 ATTTT
1 ATTTT
43489065 AGAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTTTAAAAAATTATAA
Found at i:43489059 original size:17 final size:20
Alignment explanation
Indices: 43489022--43489064 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
43489012 TCACTTTCAG
43489022 ATTTTTTAAAAAATTT-TATA
1 ATTTTTTAAAAAATTTATA-A
43489042 ATTTTTT-AAAAA-TTATAA
1 ATTTTTTAAAAAATTTATAA
43489060 ATTTT
1 ATTTT
43489065 AGAATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 7 0.32
20 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTTAAAAAATTTATAA
Found at i:43490098 original size:13 final size:14
Alignment explanation
Indices: 43490072--43490104 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
43490062 CATTTGGACT
43490072 CCACTTATTAACTG
1 CCACTTATTAACTG
*
43490086 TCACTTA-TAACTG
1 CCACTTATTAACTG
43490099 CCACTT
1 CCACTT
43490105 GCCCCAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.27, C:0.30, G:0.06, T:0.36
Consensus pattern (14 bp):
CCACTTATTAACTG
Found at i:43503681 original size:44 final size:44
Alignment explanation
Indices: 43503401--43503851 Score: 223
Period size: 44 Copynumber: 10.5 Consensus size: 44
43503391 ATTATACAGG
* *** *
43503401 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA---GAGA
* * *
43503447 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-GACAG-AGA
* * * *
43503491 TCCTAT-TTCCTGGAGATTACAATGGAGCGGATT--A-A-AG-GA
1 TCTTATCTCCCT-GAGATTACAGTGGAGCAGATTGAAGACAGAGA
* * * * *
43503530 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACA-TCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGACAGAGA
* *** *
43503571 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA---GAGA
* *
43503617 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
* * * **
43503661 TCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
* * * *
43503704 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGA-CAGAGA
* * **
43503748 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
* * *
43503791 TCTTATCCCCCCGA-AGTTACAGTGGAGCGGATT--A-A-AG-GA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAGAGA
* *
43503830 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
43503852 CAGAGTAGAT
Statistics
Matches: 309, Mismatches: 67, Indels: 65
0.70 0.15 0.15
Matches are distributed among these distances:
38 2 0.01
39 38 0.12
40 6 0.02
41 30 0.10
42 10 0.03
43 60 0.19
44 89 0.29
45 9 0.03
46 63 0.20
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
Found at i:43503711 original size:87 final size:83
Alignment explanation
Indices: 43503620--43503863 Score: 328
Period size: 87 Copynumber: 2.9 Consensus size: 83
43503610 TTTCAGATCT
* *
43503620 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATT-AA---AGAGATCTTATCTCCCTGAGATTACAGCG
43503685 GAGTAGATCGAAGACACTATCC
62 GAGTAGATCGAAGACACTATCC
43503707 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATT---A-AAGAGATCTTATCTCCCTGAGATTACAGCG
* *
43503772 GAGCAGATCGAAGACACTATCT
62 GAGTAGATCGAAGACACTATCC
* * * * *
43503794 TATCCCCCCGAAGTTACAGTGGAGCGGATTAAAG-GATCTTATCTCTCTGAGGTTACAGCAGAGT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGAGATCTTATCTCCCTGAGATTACAGCGGAGT
43503858 AGATCG
66 AGATCG
43503864 CATCAAGTCT
Statistics
Matches: 143, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
82 32 0.22
83 3 0.02
84 1 0.01
87 105 0.73
89 1 0.01
90 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (83 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGAGATCTTATCTCCCTGAGATTACAGCGGAGT
AGATCGAAGACACTATCC
Found at i:43509809 original size:124 final size:125
Alignment explanation
Indices: 43509589--43509855 Score: 464
Period size: 124 Copynumber: 2.1 Consensus size: 125
43509579 GATAAAATCA
* *
43509589 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAAAAGAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
*
43509654 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTC-GAGAAAATAGTATAAAAAACGCTTC
66 AGGTCCTAAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
*
43509713 AAGCAGGATGCTTTATCAAAAGAATTTCTAAAATCACGCCTACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAAAAGAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
43509778 AGGTCTTAAAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAATGCTTC
66 AGGTCCTAAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
43509838 AAGCAGGATGCTTTATCA
1 AAGCAGGATGCTTTATCA
43509856 GGATGCTTCA
Statistics
Matches: 135, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
124 94 0.70
125 41 0.30
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAAAAGAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
Found at i:43509850 original size:14 final size:14
Alignment explanation
Indices: 43509831--43509877 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
43509821 AGTATAAAAA
43509831 ATGCTTCAAGCAGG
1 ATGCTTCAAGCAGG
* *
43509845 ATGCTT-TATCAGG
1 ATGCTTCAAGCAGG
43509858 ATGCTTCAAGCAGG
1 ATGCTTCAAGCAGG
43509872 ATGCTT
1 ATGCTT
43509878 TAAGTTAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (14 bp):
ATGCTTCAAGCAGG
Found at i:43509859 original size:13 final size:13
Alignment explanation
Indices: 43509839--43509879 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
43509829 AAATGCTTCA
43509839 AGCAGGATGCTTT
1 AGCAGGATGCTTT
* *
43509852 ATCAGGATGCTTCA
1 AGCAGGATGCTT-T
43509866 AGCAGGATGCTTT
1 AGCAGGATGCTTT
43509879 A
1 A
43509880 AGTTAAGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (13 bp):
AGCAGGATGCTTT
Found at i:43509921 original size:22 final size:21
Alignment explanation
Indices: 43509876--43509960 Score: 152
Period size: 21 Copynumber: 4.0 Consensus size: 21
43509866 AGCAGGATGC
43509876 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
43509897 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
43509919 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
43509940 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
43509961 AGGGTTTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 41 0.67
22 20 0.33
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.45
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:43509999 original size:12 final size:12
Alignment explanation
Indices: 43509982--43510006 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43509972 AGGGTTTGTC
43509982 AATTAAATTATA
1 AATTAAATTATA
43509994 AATTAAATTATA
1 AATTAAATTATA
43510006 A
1 A
43510007 TTTATAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:43510544 original size:18 final size:18
Alignment explanation
Indices: 43510518--43510560 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
43510508 GACTCGAAAA
* * *
43510518 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
43510536 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
43510554 AGGATAC
1 AGGATAC
43510561 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Done.